Identification and characterization of DNA imbalances in neuroblastoma by high-resolution oligonucleotide array comparative genomic hybridization

Paola Scaruffi, Simona Coco, Francisco Cifuentes, Domenico Albino, Manoj Nair, Raffaella Defferrari, Katia Mazzocco, Gian Paolo Tonini

Research output: Contribution to journalArticle

29 Citations (Scopus)

Abstract

Neuroblastoma (NB) is a pediatric tumor characterized by high genetic heterogeneity. Although the prognostic significance of some genomic abnormalities (i.e., MYCN amplification, 1p loss, and 17q gain) is recognized, genes that are involved in chromosome rearrangements remain largely unknown. Considerable progress has been made over the last years in characterizing DNA abnormalities by metaphase comparative genomic hybridization (mCGH) and array CGH (aCGH). Here we report a pilot study of 5 localized and 12 disseminated NB by 44,000 and of 4 out of 17 cases by 244,000 oligonucleotide aCGH. Localized tumors were predominantly characterized by losses of whole chromosomes 3, 4, 10, and 16, and gains of 6, 7, 8, 13, 17, 18, and 20, whereas disseminated tumors showed several structural aberrations including 17q gain and 3p and 11q losses. Characterization of chromosome 2p in MYCN-amplified NB revealed several structural rearrangements with regions of gain interspersed among sites of amplification, indicating that the MYCN amplicon may encompass several genes. The high-resolution zooming in chromosomal aberrant regions detected several micro-deletions and micro-amplifications in the NB genome. Our results indicate that the increased sensitivity of the aCGH also allows the identification of DNA aberrations in challenging samples (i.e., NB showing tissue and genetic heterogeneity).

Original languageEnglish
Pages (from-to)20-29
Number of pages10
JournalCancer Genetics and Cytogenetics
Volume177
Issue number1
DOIs
Publication statusPublished - Aug 2007

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Comparative Genomic Hybridization
Oligonucleotide Array Sequence Analysis
Neuroblastoma
DNA
Genetic Heterogeneity
Chromosomes
Neoplasms
Chromosomes, Human, Pair 4
Chromosomes, Human, Pair 3
Metaphase
Genes
Genome
Pediatrics

ASJC Scopus subject areas

  • Cancer Research
  • Genetics
  • Molecular Biology

Cite this

Identification and characterization of DNA imbalances in neuroblastoma by high-resolution oligonucleotide array comparative genomic hybridization. / Scaruffi, Paola; Coco, Simona; Cifuentes, Francisco; Albino, Domenico; Nair, Manoj; Defferrari, Raffaella; Mazzocco, Katia; Tonini, Gian Paolo.

In: Cancer Genetics and Cytogenetics, Vol. 177, No. 1, 08.2007, p. 20-29.

Research output: Contribution to journalArticle

Scaruffi, Paola ; Coco, Simona ; Cifuentes, Francisco ; Albino, Domenico ; Nair, Manoj ; Defferrari, Raffaella ; Mazzocco, Katia ; Tonini, Gian Paolo. / Identification and characterization of DNA imbalances in neuroblastoma by high-resolution oligonucleotide array comparative genomic hybridization. In: Cancer Genetics and Cytogenetics. 2007 ; Vol. 177, No. 1. pp. 20-29.
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